New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 743469	34 (1.460)	6 (0.300) +AGGCAGGTCTGATTTCGC	8/218	NT	21.5%	intergenic (+145/+129)	PP_0635/PP_0636	group II intron‑encoding maturase/cold shock DNA‑binding domain‑containing protein
	?	NC_002947	= 1431465	17 (0.730)					intergenic (+74/+78)	PP_1252/PP_1253	group II intron‑encoding maturase/ArsR family transcriptional regulator

CTGAACCGCCGTGTACGGAACCGTACGCACGGTGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTGGCGGTCACGCTAAGCCGAGTGAGGCATTCGATCCTGCTAGCGACGCATTTGCTTA  >  NC_002947/743321‑743616                                                                                                                                                     |                                                                                                                                                    cTGAACCGCCGTGTACGGAACCGTACGCACGGTGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTAACGCAACCGAAGGTTGCTTCACATAGCGGGCACACAa                                                                                                                                                    >  1:41676‑M1/1‑149 (MQ=255)  tGAACCGCCGTGTACGGAACCGTACGCACGGTGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGc                                                                                                                                                   >  2:402112/1‑150 (MQ=255)       cgccgTGTACGGAACCGTACGCACGGTGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGcgtcgt                                                                                                                                              >  2:190060/1‑150 (MQ=255)       cgccgTGTACGGAACCGTACGCACGGTGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGcgtcgt                                                                                                                                              <  1:190060/150‑1 (MQ=255)       cgccgTGTACGGAACCGTACGCACGGTGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGcgtcgt                                                                                                                                              <  2:422718/150‑1 (MQ=255)            tgtACGGAACCGTACGCACGGTGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTAACGCAACCGAAGGTTGCTTCACATAGCGGGCACACAaggcaggtctga                                                                                                                                         <  2:41676‑M1/150‑13 (MQ=255)                 ggAACCGTACGCACGGTGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCGGGGAAGGTCCCCTATGTGAAGCAACCTTCGGTTGCACTAAATAAAGAGCATACATCCTCTTGACTTGCCgg                                                                                                                                    >  1:11156/1‑150 (MQ=17)                   aaCCGTACGCACGGTGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCgggg                                                                                                                                  <  1:310126/150‑1 (MQ=255)                     ccGTACGCACGGTGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGaa                                                                                                                                >  2:567880/1‑150 (MQ=255)                       gTACGCACGGTGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAac                                                                                                                              >  2:61058/1‑150 (MQ=255)                            cACGGGGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACtt                                                                                                                         <  1:95169/150‑1 (MQ=255)                                               ggcggGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCACGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCa                                                                                                      <  2:502199/150‑1 (MQ=255)                                                  gggTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCagag                                                                                                   >  1:85525/1‑150 (MQ=255)                                                         aaTCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGcgtc                                                                                                                                                >  1:286744/1‑98 (MQ=255)                                                         aaTCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGcgtc                                                                                                                                                <  2:286744/98‑1 (MQ=255)                                                             cGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGa                                                                                        >  2:409425/1‑150 (MQ=255)                                                                        cGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGt                                                                             <  1:567880/150‑1 (MQ=255)                                                                          aTTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTgg                                                                           <  2:85525/150‑1 (MQ=255)                                                                            tGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCg                                                                         <  1:450438/150‑1 (MQ=255)                                                                                 gAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAAACTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCATAGACTTTAGGGGAGCGTTGACAGTGGCGGTTTc                                                                    <  1:236257/150‑1 (MQ=255)                                                                                         aCCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACtt                                                                                                                         >  1:607768/1‑89 (MQ=255)                                                                                         aCCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACtt                                                                                                                         <  2:607768/89‑1 (MQ=255)                                                                                             gCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTgg                                                        >  2:424337/1‑150 (MQ=255)                                                                                                    gtgCCCGCTATTTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTGGCGGTCAc                                                 <  1:61058/150‑1 (MQ=255)                                                                                                     tgCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCa                                                                                                      <  1:575594/96‑1 (MQ=255)                                                                                                     tgCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCa                                                                                                      >  2:575594/1‑96 (MQ=255)                                                                                                      gCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAaggcaggtctgatttcgcgcaatcgagtaggaggcggattcacacccgccgtcctctcacaccaccgtgcgtacggttcc                                                                     >  1:567913‑M1/1‑48 (MQ=255)                                                                                                      gCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAaggcaggtctgatttcgcgcaatcgagtaggaggcggattcacacccgccgtcctctcacaccaccgtgcgtacggttcc                                                                     <  2:567913‑M1/128‑81 (MQ=255)                                                                                                       tccGCTATGTAACGCAACCGAAGGTTGCTTCACATAGCGGGCACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTGGCGGTCACGCt                                              >  2:479592/2‑150 (MQ=37)                                                                                                       cccGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGGCACACAaggcaggtctgatttcgcgcaatcgagtaggaggcggattcacacccgccgtcctctcacaccaccgtgcgtacggttccgtacacggcggttcaggttacgc                                              >  2:150190‑M1/1‑47 (MQ=255)                                                                                                                tgAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTGGCGGTCACGCTAAGCCGAGt                                     <  1:424337/150‑1 (MQ=255)                                                                                                                 gAAGCAACCTTCGGTTGCGTTACATAGCGGGCACACAaggcaggtctgatttcgcgcaatcgagtaggaggcggatt                                                                                                             >  2:316985‑M1/1‑37 (MQ=255)                                                                                                                 gAAGCAACCTTCGGTTGCGTTACATAGCGGGCACACAaggcaggtctgatttcgcgcaatcgagtaggaggcggatt                                                                                                             <  1:316985‑M1/77‑41 (MQ=255)                                                                                                                   aGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTGGCGGTCACGCTAAGCCGAGTGAg                                  >  1:500455/1‑150 (MQ=255)                                                                                                                         cTTCGGTTGCGTTACATAGCGGACACACAaggcaggtctgatttcgcgcaatcgagtaggaggcggattcacacccgccgtcctctcacaccaccgtgcgtacggttccgtacacggcggttcaggttacgcggctaagccggttaatcg                            >  2:517827‑M1/1‑29 (MQ=255)                                                                                                                             ggTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTGGCGGTCACGCTAAGCCGAGTGAGGCATTCGATc                        <  1:402112/150‑1 (MQ=255)                                                                                                                              gTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTg                                                         >  2:264328/1‑116 (MQ=255)                                                                                                                              gTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTg                                                         <  1:264328/116‑1 (MQ=255)                                                                                                                              gTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTGGCGGTCACGCTAAGCCGAGTGAGGCATTCGATcc                       >  1:26447/1‑150 (MQ=255)                                                                                                                                   gTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGc                                                                                      >  2:137719/1‑82 (MQ=255)                                                                                                                                   gTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGc                                                                                      <  1:137719/82‑1 (MQ=255)                                                                                                                                   gTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGc                                                                                      <  1:137722/82‑1 (MQ=255)                                                                                                                                   gTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGc                                                                                      >  2:137722/1‑82 (MQ=255)                                                                                                                                        aTAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTGGCGGTCACGCTAAGCCGAGTGAGGCATTCGATCCTGCTAGCGAc             <  1:409425/150‑1 (MQ=255)                                                                                                                                                cacacaGCGTCGTTACTTGCCGGGTAAACTACTTGTTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGCTTTCAAGCTAGCTTGGCGGTCACGCTAAGCCGAGTGAGGCATTCGATCCTGCTAGCGACGCATTTGc     <  1:13504/150‑1 (MQ=255)                                                                                                                                                 acacaaggcaggtctgatttcgcgcaatcgagtaggaggcggattcacacccgccgtaatctcacaccaccgtgcgtacggttccgtacacggcggttcaggttacgcggctaagcgggttaatcgtatccagtatcgagaccagcccga    >  1:75339‑M1/1‑5 (MQ=255)                                                                                                                                                   acaGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTGGCGGTCACGCTAAGcc                                         <  1:62903/111‑1 (MQ=255)                                                                                                                                                   acaGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTGGCGGTCACGCTAAGcc                                         >  2:62903/1‑111 (MQ=255)                                                                                                                                                   acaGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTGGCGGTCACGCTAAGCCGAGTGAGGCATTCGATCCTGCTAGCGACGCATTTGCTTa  >  1:56639/1‑150 (MQ=255)                                                                                                                                                     |                                                                                                                                                    CTGAACCGCCGTGTACGGAACCGTACGCACGGTGGTGTGAGAGGACGGCGGGTGTGAATCCGCCTCCTACTCGATTGCGCGAAATCAGACCTGCCTTGTGTGCCCGCTATGTGAAGCAACCTTCGGTTGCGTTACATAGCGGACACACAGCGTCGTGACTTGCCGGGGAAACTACTTGGTCGCGGCGTGTGGAGCAGAGACTGTAGGGGAGCGTTGACAGTGGCGGTTTCAAGCTAGCTTGGCGGTCACGCTAAGCCGAGTGAGGCATTCGATCCTGCTAGCGACGCATTTGCTTA  >  NC_002947/743321‑743616

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.